Title: High Performance Algorithms for Vine Copula Modeling Description: Provides an interface to 'vinecopulib', a C++ library for vine
copula modeling based on 'Boost' and 'Eigen'. The 'rvinecopulib'
package implements the core features of the popular 'VineCopula' package, in
particular inference algorithms for both vine copula and bivariate copula
models. Advantages over 'VineCopula' are a sleeker and more modern API,
improved performances, especially in high dimensions, nonparametric and
multi-parameter families. The 'rvinecopulib' package includes 'vinecopulib' as
header-only C++ library (currently version 0.3.0). Thus
users do not need to install 'vinecopulib' itself in order to use
'rvinecopulib'. Since their initial releases, 'vinecopulib' is licensed under
the MIT License, and 'rvinecopulib' is licensed under the GNU GPL version 3. Author: Thomas Nagler [aut, cre],
Thibault Vatter [aut] Maintainer: Thomas Nagler <info@vinecopulib.org>

Title: Bayesian Classification and Information Sharing (BaCIS) Tool for
the Design of Multi-Group Phase II Clinical Trials Description: Provides the design of multi-group phase
II clinical trials with binary outcomes using the hierarchical Bayesian
classification and information sharing (BaCIS) model. Subgroups are classified
into two clusters on the basis of their outcomes mimicking the hypothesis
testing framework. Subsequently, information sharing takes place within
subgroups in the same cluster, rather than across all subgroups. This method can
be applied to the design and analysis of multi-group clinical trials with binary
outcomes. Author: Nan Chen and J. Jack Lee Maintainer: Nan Chen <nchen2@mdanderson.org>

Title: Tools for Parsing and Generating XML Within R and S-Plus Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter". Author: Duncan Temple Lang and the CRAN Team Maintainer: ORPHANED

Title: Clinical Trial Designs in 'RStan' Description: A showcase of Bayesian clinical trial designs, implemented in
'RStan' and R. Some designs are implemented in R for the first
time (e.g. 'EffTox' by Thall and Cook, 2004,
<https://biostatistics.mdanderson.org/softwaredownload/SingleSoftware.aspx?Software_Id=2>).
Given the emphasis on flexibility in Bayesian analysis,
the implementations in a common language and style may serve as a cookbook
to encourage the use of Bayesian methods in trials. Compiled 'RStan' models
are provided in addition to helper classes and functions to perform
simulations and inference on observed trial outcomes.
There is a preponderance of early phase trial designs because this is where
Bayesian methods are used most. If there is a published Bayesian design you
want implemented in 'Stan', get in touch. Author: Kristian Brock [aut, cre],
Trustees of Columbia University [cph] Maintainer: Kristian Brock <kristian.brock@gmail.com>

Title: High Density Genetic Linkage Mapping using Multidimensional
Scaling Description: Estimate genetic linkage maps for markers on a single chromosome (or in a single linkage group) from pairwise recombination fractions or intermarker distances using weighted metric multidimensional scaling. The methods are suitable for autotetraploid as well as diploid populations. Options for assessing the fit to a known map are also provided. Methods are discussed in detail in Preedy and Hackett (2016) <doi:10.1007/s00122-016-2761-8>. Author: Katharine F. Preedy <Katharine.preedy@bioss.ac.uk>, Christine A. Hackett <christine.hackett@bioss.ac.uk> Maintainer: Bram Boskamp <bram.boskamp@bioss.ac.uk>

Title: Read Human Mortality Database and Human Fertility Database Data
from the Web Description: Utilities for reading data from the Human Mortality Database (<https://www.mortality.org>), Human Fertility Database (<https://www.humanfertility.org>), and similar databases from the web or locally into an R session as data.frame objects. These are the two most widely used sources of demographic data to study basic demographic change, trends, and develop new demographic methods. Other supported databases at this time include the Human Fertility Collection (<http://www.fertilitydata.org/>), The Japanese Mortality Database (<http://www.ipss.go.jp/p-toukei/JMD>), and the Canadian Human Mortality Database (<http://www.bdlc.umontreal.ca/chmd/>). Arguments and data are standardized. Author: Tim Riffe [aut, cre],
Carl Boe [aut],
Jason Hilton [aut],
Josh Goldstein [ctb],
Stephen Holzman [ctb] Maintainer: Tim Riffe <tim.riffe@gmail.com>

Title: The Integration Between 'IBM COGNOS TM1' and R Description: Useful functions to connect to 'TM1' <https://www.ibm.com/uk-en/marketplace/planning-and-analytics> instance from R via REST API. With the functions in the package, data can be imported from 'TM1' via mdx view or native view, data can be sent to 'TM1', processes and chores can be executed, and cube and dimension metadata information can be taken. Author: Muhammed Ali Onder Maintainer: Muhammed Ali Onder <muhammedalionder@gmail.com>

Title: Spatio-Temporal Uncertainty Propagation Across Multiple Scales Description: Integrated environmental modelling requires coupling sub-models at
different spatial and temporal scales, thus accounting for change of support
procedures (aggregation and disaggregation). We contribute to state-of-the-art
open source tools that support uncertainty propagation analysis in temporal and
spatio-temporal domains. We implement the tool for uncertainty propagation in
environmental modelling, with examples in the urban water domain.
The functionalities of the class setup and the methods and functions MC.setup,
MC.sim, MC.analysis and Agg.t are contained, which are used for setting up,
running and analysing Monte Carlo uncertainty propagation simulations, and for
spatio-temporal aggregation. We also implement functionalities to model and predict
variables that vary in space and time. stUPscales takes uncertainty characterisation
and propagation a step further by including temporal and spatio-temporal auto- and
cross-correlation, resulting in more realistic (spatio-)temporal series of environmental
variables. Due to its modularity, the package allows the implementation of additional
methods and functions for spatio-temporal disaggregation of model inputs and outputs,
when linking models across multiple space-time scales. Author: J.A. Torres-Matallana [aut, cre]
U. Leopold [ctb]
G.B.M. Heuvelink [ctb] Maintainer: J.A. Torres-Matallana <arturo.torres@list.lu>

Title: Flexible Tools for Multiple Imputation Description: Provides a set of tools that can be used across 'data.frame' and
'imputationList' objects. Author: James Conigrave Maintainer: James Conigrave <james.conigrave@gmail.com>